Locus 3001

Sequence ID 3L_DroMel_CAF1
Location 8,632,394 – 8,632,500
Length 106
Max. P 0.682513
window4684

overview

Window 4

Location 8,632,394 – 8,632,500
Length 106
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 81.79
Mean single sequence MFE -28.13
Consensus MFE -20.59
Energy contribution -19.98
Covariance contribution -0.60
Combinations/Pair 1.41
Mean z-score -1.59
Structure conservation index 0.73
SVM decision value 0.31
SVM RNA-class probability 0.682513
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8632394 106 + 23771897
GUAAGCGUGACCAAAUAUGGGGAACCAGAAGUGGGUUAUGGGAAACUUGUGCGCUCU----GCAGAAAUUUCAGGGAAAUUAGCACUUAAUGCUUUAUCAUUUACAAAUU
((((((((((((.....(((....)))......)))))))(....)..((((.((((----(.(....)..)))))......))))..............)))))..... ( -25.90)
>DroPse_CAF1 22240 108 + 1
GGAAACGUGACCAAAUAUGGGGAACUAGA-GUGGGUUACGGAAGAUUUAUGUGUUGUUUGCACAGAUAUUCCAAGGGGAAAAGAUCUGACGACUUGACAAGAUCAA-GGU
(....)((((((.....(((....)))..-...))))))(..((((((.(((((.....)))))....((((....)))).))))))..)..(((((.....))))-).. ( -31.70)
>DroSec_CAF1 20600 106 + 1
GUAAGCGUGACCAAAUAUGGGGAACCAGAAGUGGGUUAUGGGAAACCUGUGCGCUCU----GCAGAAAUUUCAGGGAAAUUAGCACUUAAUGCUUCGCCAUUUACAAAUU
((((((((((((.....(((....)))......))))))((....)).((((.((((----(.(....)..)))))......)))).....)))).))............ ( -28.40)
>DroSim_CAF1 17812 106 + 1
GUAAGCGUGACCAAAUAUGGGGAACCAGAAGUGGGUUAUGGGAAACCUGUGCGCUCU----GCAGAAAUUUCAGGGAAAUUAGCACUUAAUGCUUUGCCUUUUACAAAUU
((((((((((((.....(((....)))......))))))((....)).((((.((((----(.(....)..)))))......)))).....)).))))............ ( -28.40)
>DroEre_CAF1 22014 105 + 1
GUAUGCGUGACCAAAUAUGGGGAACCAGAAGUGGGUUAUGGGCAGCCUGCGCGCUCC----GCAGAAAUUUCAAGGAAAUUAGCACUCAAAACUUCACAAUGUGCA-AUU
((((..(((((((....(((....)))....)))(((.((((..(((((((.....)----)))).((((((...)))))).)).)))).))).))))...)))).-... ( -28.80)
>DroYak_CAF1 21358 106 + 1
GUAAACGUGACCAAAUAUGGGGAACCAGAAGUGGGUUAUGGGAAACCUGUGCGCUCU----GCAGAAAUUUCAAGGAAAUUAGCACUUAAAGCUUCGCAAUUCACAAAUU
......((((.......(((....)))(((((...(((.((....)).((((((...----))...((((((...)))))).)))).))).))))).....))))..... ( -25.60)
>consensus
GUAAGCGUGACCAAAUAUGGGGAACCAGAAGUGGGUUAUGGGAAACCUGUGCGCUCU____GCAGAAAUUUCAAGGAAAUUAGCACUUAAUGCUUCACAAUUUACAAAUU
((((((((((((.....(((....)))......)))))))........((((((.......))...((((((...)))))).))))..............)))))..... (-20.59 = -19.98 +  -0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:07 2006